Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g12089 g12089.t77 TTS g12089.t77 20883568 20883568
chr_1 g12089 g12089.t77 isoform g12089.t77 20883607 20884841
chr_1 g12089 g12089.t77 exon g12089.t77.exon1 20883607 20883902
chr_1 g12089 g12089.t77 cds g12089.t77.CDS1 20883607 20883902
chr_1 g12089 g12089.t77 exon g12089.t77.exon2 20883962 20884077
chr_1 g12089 g12089.t77 cds g12089.t77.CDS2 20883962 20884077
chr_1 g12089 g12089.t77 exon g12089.t77.exon3 20884137 20884260
chr_1 g12089 g12089.t77 cds g12089.t77.CDS3 20884137 20884260
chr_1 g12089 g12089.t77 exon g12089.t77.exon4 20884512 20884612
chr_1 g12089 g12089.t77 cds g12089.t77.CDS4 20884512 20884612
chr_1 g12089 g12089.t77 exon g12089.t77.exon5 20884672 20884841
chr_1 g12089 g12089.t77 cds g12089.t77.CDS5 20884672 20884841
chr_1 g12089 g12089.t77 TSS g12089.t77 20884883 20884883

Sequences

>g12089.t77 Gene=g12089 Length=807
ATGTTCCTGATCATTCTAACTTTATTAATAATTTCTACAATTTTATATAAGAACAATCAT
GTGTTTAAATATAATGTTAAATATCTTTTTTACATACTCGCATCATCAATTTTAGGGACA
CTTTCAATTCCTTATTTGATGCTACGACCAAGAAATCCGATAAATTTTAGAGGAGTTTGT
AAAATGTTTAGATTGATGTCACCTGTTTTGGGTTTGAGTTACGAATTAAGAGGAATAAAT
AATTTAGAAAAAGACTATGCATGTGTAATCGTCATTAAAAGCATTTTTATTGATTTAGAA
ATTTGGTATGCAATGCGAAGACATCCAATATTTCGAGTTACAGCAGTTGCAAGAATGTTA
TTGCTATTTGCTGGACCATATGGAATTGGTGCATGGTTGTCTGGATTAATTTTCATCAAT
AAAGATTCACCAGATCGTGGGATCAAAAAAATGAATGAAAGCATGGAATATTTAAAGAAA
AATAAAATTCATTTGTGGATGTATGTGGAAGGCTATCGAAATCATTCGGGAAAGATTGAT
GAATTTAAGAAAGGAGCTTTTAGATTGGCAATTCAATCTCAAGTTCCAATTATACCTCTT
GTTATCTCGTCATACAATTATTTTCTTGACCCAAAAAAGATGATTTTCAATTCTGGGAAA
ATTATAATTGAAGTCCTTCCCGAAATACCAACTAAAGGATTAAAATTGAGTGATTTGGAT
ACATTAATGGAGAAAACTAGAAATGTGATGGTGAAAAAATTTGATGAATTAAATAATGAA
TTAAGATTGAATAATAATTTAAAATAA

>g12089.t77 Gene=g12089 Length=268
MFLIILTLLIISTILYKNNHVFKYNVKYLFYILASSILGTLSIPYLMLRPRNPINFRGVC
KMFRLMSPVLGLSYELRGINNLEKDYACVIVIKSIFIDLEIWYAMRRHPIFRVTAVARML
LLFAGPYGIGAWLSGLIFINKDSPDRGIKKMNESMEYLKKNKIHLWMYVEGYRNHSGKID
EFKKGAFRLAIQSQVPIIPLVISSYNYFLDPKKMIFNSGKIIIEVLPEIPTKGLKLSDLD
TLMEKTRNVMVKKFDELNNELRLNNNLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g12089.t77 CDD cd07989 LPLAT_AGPAT-like 63 247 1.41693E-27
2 g12089.t77 PANTHER PTHR10434:SF50 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 3 262 1.7E-72
3 g12089.t77 PANTHER PTHR10434 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 3 262 1.7E-72
1 g12089.t77 Pfam PF01553 Acyltransferase 101 203 2.7E-15
14 g12089.t77 Phobius SIGNAL_PEPTIDE Signal peptide region 1 13 -
15 g12089.t77 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
16 g12089.t77 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 9 -
20 g12089.t77 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 10 13 -
12 g12089.t77 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 14 28 -
19 g12089.t77 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 48 -
11 g12089.t77 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 49 85 -
18 g12089.t77 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 105 -
13 g12089.t77 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 106 116 -
17 g12089.t77 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 117 139 -
10 g12089.t77 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 140 268 -
9 g12089.t77 SMART SM00563 plsc_2 88 205 1.2E-10
8 g12089.t77 SUPERFAMILY SSF69593 Glycerol-3-phosphate (1)-acyltransferase 14 261 5.36E-31
6 g12089.t77 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 16 -
7 g12089.t77 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 26 48 -
4 g12089.t77 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 137 -
5 g12089.t77 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 190 209 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016746 acyltransferase activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed